Comparison of Results from Zymo D6300; D6331 and D6323 FR : V1-V9 EMU on EMU database
Balázs Kakuk
2025-01-09
Notes
- Unclassified reads were excluded
- Taxa with total reads number of 10 or lower were excluded
- Eukaryotes were excluded from the analyis
Import Exp data
MCM D6300
MCM D6331
FR D6323
Canis lupus
Homo sapiens
Merge
Filter Exp data
Filter samples based on total read count
Fix sample names
Add lineage and metadata to Gold Standard Data
Limosilactobacillus fermentum in the theoretical composition was changed to Lactobacillus fermentum
## Error in validObject(.Object) : invalid class "otu_table" object:
## OTU abundance data must have non-zero dimensions.Fix sample names from ‘-’
Merge exp data with GS
Filter Taxa for Gold Standard
These are the taxa that were found in the experimental data
Add Gram Stain Info
Omit Eukaryotes
Zymo ONT V1-V9 comparison: Relative abundance of taxa at each taxonomic level
Gram Stain level
Barplot of abundances
Heatmap of VST-normalized abundance values
Phylum level
Barplot of abundacnes
Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus
| taxon_level | comparison | FALSE | TRUE |
|---|---|---|---|
| phylum | FR_VS_Canis_lupus | 2 | 10 |
| phylum | FR_VS_Homo_sapiens | 4 | 8 |
| phylum | Homo_sapiens_VS_Canis_lupus | 4 | 8 |
L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus
FR Taxa that are more similar to H. sapiens than to C. lupus
## Key: <taxon>
## taxon baseMean log2FoldChange lfcSE
## <char> <num> <num> <num>
## 1: Bacteria;Actinobacteria 2.678494e+04 -4.3147007 0.7143088
## 2: Bacteria;Bacteroidetes 1.802569e+05 -5.2797329 0.3174523
## 3: Bacteria;Candidatus Melainabacteria 6.157036e+02 -0.8421689 0.4205756
## 4: Bacteria;Cyanobacteria 7.860800e-01 0.3405971 4.6132542
## 5: Bacteria;Deferribacteres 2.912625e+01 0.0000000 1.0338273
## 6: Bacteria;Firmicutes 9.754949e+06 -3.9428775 0.3721534
## 7: Bacteria;Fusobacteria 8.566745e+03 -4.3047723 0.6444276
## 8: Bacteria;Lentisphaerae 2.505756e+01 5.3341874 1.0416970
## 9: Bacteria;Proteobacteria 1.186806e+06 -4.3850262 0.4822045
## 10: Bacteria;Synergistetes 1.589855e+01 4.6778969 1.2781228
## 11: Bacteria;Tenericutes 1.012387e+02 5.4848352 0.8345202
## 12: Bacteria;Verrucomicrobia 1.002575e+03 2.8866396 1.3964790
## stat pvalue padj comparison superkingdom
## <num> <num> <num> <char> <char>
## 1: -6.04038555 1.537464e-09 3.074928e-09 FR_VS_Homo_sapiens Bacteria
## 2: -16.63157926 4.116008e-62 4.939209e-61 FR_VS_Homo_sapiens Bacteria
## 3: -2.00241979 4.523960e-02 5.428752e-02 FR_VS_Homo_sapiens Bacteria
## 4: 0.07383011 9.411456e-01 1.000000e+00 FR_VS_Homo_sapiens Bacteria
## 5: 0.00000000 1.000000e+00 1.000000e+00 FR_VS_Homo_sapiens Bacteria
## 6: -10.59476385 3.151354e-26 1.890812e-25 FR_VS_Homo_sapiens Bacteria
## 7: -6.67999347 2.389529e-11 7.168587e-11 FR_VS_Homo_sapiens Bacteria
## 8: 5.12067072 3.044509e-07 5.219157e-07 FR_VS_Homo_sapiens Bacteria
## 9: -9.09370584 9.571960e-20 3.828784e-19 FR_VS_Homo_sapiens Bacteria
## 10: 3.65997446 2.522404e-04 3.783606e-04 FR_VS_Homo_sapiens Bacteria
## 11: 6.57244127 4.949691e-11 1.187926e-10 FR_VS_Homo_sapiens Bacteria
## 12: 2.06708410 3.872623e-02 5.163497e-02 FR_VS_Homo_sapiens Bacteria
## phylum is.significant taxon_level
## <char> <lgcl> <char>
## 1: Actinobacteria TRUE phylum
## 2: Bacteroidetes TRUE phylum
## 3: Candidatus Melainabacteria FALSE phylum
## 4: Cyanobacteria FALSE phylum
## 5: Deferribacteres FALSE phylum
## 6: Firmicutes TRUE phylum
## 7: Fusobacteria TRUE phylum
## 8: Lentisphaerae TRUE phylum
## 9: Proteobacteria TRUE phylum
## 10: Synergistetes TRUE phylum
## 11: Tenericutes TRUE phylum
## 12: Verrucomicrobia FALSE phylumFR Taxa that are more similar to C. lupus than to H. sapiens
## Key: <taxon>
## taxon l2fc_Hsap l2fc_Clup similarity
## <char> <num> <num> <char>
## 1: Bacteria;Actinobacteria -4.314701 -2.049692 Closer to C. lupus
## 2: Bacteria;Bacteroidetes -5.279733 0.340257 Closer to C. lupus
## 3: Bacteria;Firmicutes -3.942877 -2.006224 Closer to C. lupus
## 4: Bacteria;Proteobacteria -4.385026 -3.525608 Closer to C. lupus
## 5: Bacteria;Tenericutes 5.484835 -1.399304 Closer to C. lupusHeatmap of VST-normalized abundance values
Heatmap of Log2 FC values
Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance
Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance
Class level
Barplot of abundances
Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus
| taxon_level | comparison | NA | FALSE | TRUE |
|---|---|---|---|---|
| class | FR_VS_Canis_lupus | 1 | 3 | 19 |
| class | FR_VS_Homo_sapiens | 1 | 8 | 14 |
| class | Homo_sapiens_VS_Canis_lupus | 1 | 8 | 14 |
L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus
FR Taxa that are more similar to H. sapiens than to C. lupus
## Key: <taxon>
## taxon baseMean log2FoldChange
## <char> <num> <num>
## 1: Bacteria;Actinobacteria;Actinobacteria 2.163387e+04 -3.552107
## 2: Bacteria;Actinobacteria;Coriobacteriia 4.100346e+03 -2.253738
## 3: Bacteria;Bacteroidetes;Bacteroidia 7.389264e+04 -3.593074
## 4: Bacteria;Candidatus Melainabacteria;unassigned 3.085921e+02 1.095861
## 5: Bacteria;Cyanobacteria;Gloeobacteria 8.217386e-01 2.175359
## 6: Bacteria;Cyanobacteria;unassigned 0.000000e+00 0.000000
## 7: Bacteria;Deferribacteres;Deferribacteres 2.075853e+01 0.000000
## 8: Bacteria;Firmicutes;Bacilli 2.059146e+07 -1.398403
## 9: Bacteria;Firmicutes;Clostridia 7.575267e+05 -2.018137
## 10: Bacteria;Firmicutes;Erysipelotrichia 2.682187e+03 1.154621
## 11: Bacteria;Firmicutes;Negativicutes 1.536838e+05 -2.483577
## 12: Bacteria;Firmicutes;Tissierellia 4.571805e+00 2.122668
## 13: Bacteria;Firmicutes;unassigned 4.507295e+00 4.630709
## 14: Bacteria;Fusobacteria;Fusobacteriia 1.001747e+04 -2.827207
## 15: Bacteria;Lentisphaerae;Lentisphaeria 2.121432e+01 6.865458
## 16: Bacteria;Proteobacteria;Alphaproteobacteria 5.645376e+02 -4.034546
## 17: Bacteria;Proteobacteria;Betaproteobacteria 3.590787e+03 -2.735312
## 18: Bacteria;Proteobacteria;Deltaproteobacteria 1.280929e+02 -2.159751
## 19: Bacteria;Proteobacteria;Epsilonproteobacteria 4.267906e+01 0.000000
## 20: Bacteria;Proteobacteria;Gammaproteobacteria 3.163466e+06 -1.825525
## 21: Bacteria;Synergistetes;Synergistia 1.385104e+01 6.250748
## 22: Bacteria;Tenericutes;Mollicutes 7.047844e+01 7.305580
## 23: Bacteria;Verrucomicrobia;Verrucomicrobiae 1.654620e+03 4.504165
## taxon baseMean log2FoldChange
## lfcSE stat pvalue padj comparison
## <num> <num> <num> <num> <char>
## 1: 0.8543358 -4.1577411 3.214100e-05 5.892516e-05 FR_VS_Homo_sapiens
## 2: 1.2359175 -1.8235344 6.822249e-02 8.828792e-02 FR_VS_Homo_sapiens
## 3: 0.1866733 -19.2479314 1.469128e-82 3.232082e-81 FR_VS_Homo_sapiens
## 4: 0.2318196 4.7272154 2.276198e-06 5.007635e-06 FR_VS_Homo_sapiens
## 5: 4.6131269 0.4715584 6.372420e-01 7.009662e-01 FR_VS_Homo_sapiens
## 6: 0.0000000 0.0000000 1.000000e+00 NA FR_VS_Homo_sapiens
## 7: 0.9799557 0.0000000 1.000000e+00 1.000000e+00 FR_VS_Homo_sapiens
## 8: 0.2498173 -5.5977035 2.172098e-08 5.309574e-08 FR_VS_Homo_sapiens
## 9: 0.1770901 -11.3961023 4.372605e-30 3.206577e-29 FR_VS_Homo_sapiens
## 10: 0.9262408 1.2465666 2.125564e-01 2.597912e-01 FR_VS_Homo_sapiens
## 11: 0.1910992 -12.9962680 1.284608e-38 1.413069e-37 FR_VS_Homo_sapiens
## 12: 3.2771459 0.6477185 5.171670e-01 5.988250e-01 FR_VS_Homo_sapiens
## 13: 2.2847786 2.0267648 4.268648e-02 6.260683e-02 FR_VS_Homo_sapiens
## 14: 0.4852630 -5.8261330 5.672640e-09 1.559976e-08 FR_VS_Homo_sapiens
## 15: 0.6969369 9.8509025 6.793123e-23 2.988974e-22 FR_VS_Homo_sapiens
## 16: 0.3630938 -11.1115804 1.101919e-28 6.060552e-28 FR_VS_Homo_sapiens
## 17: 1.1568650 -2.3644176 1.805844e-02 2.837755e-02 FR_VS_Homo_sapiens
## 18: 1.1071893 -1.9506610 5.109739e-02 7.025891e-02 FR_VS_Homo_sapiens
## 19: 0.9761045 0.0000000 1.000000e+00 1.000000e+00 FR_VS_Homo_sapiens
## 20: 0.4238004 -4.3075124 1.651008e-05 3.302016e-05 FR_VS_Homo_sapiens
## 21: 0.7141698 8.7524668 2.087389e-18 6.560365e-18 FR_VS_Homo_sapiens
## 22: 0.7486809 9.7579363 1.705911e-22 6.255007e-22 FR_VS_Homo_sapiens
## 23: 1.4130954 3.1874459 1.435353e-03 2.429059e-03 FR_VS_Homo_sapiens
## lfcSE stat pvalue padj comparison
## superkingdom phylum class
## <char> <char> <char>
## 1: Bacteria Actinobacteria Actinobacteria
## 2: Bacteria Actinobacteria Coriobacteriia
## 3: Bacteria Bacteroidetes Bacteroidia
## 4: Bacteria Candidatus Melainabacteria unassigned
## 5: Bacteria Cyanobacteria Gloeobacteria
## 6: Bacteria Cyanobacteria unassigned
## 7: Bacteria Deferribacteres Deferribacteres
## 8: Bacteria Firmicutes Bacilli
## 9: Bacteria Firmicutes Clostridia
## 10: Bacteria Firmicutes Erysipelotrichia
## 11: Bacteria Firmicutes Negativicutes
## 12: Bacteria Firmicutes Tissierellia
## 13: Bacteria Firmicutes unassigned
## 14: Bacteria Fusobacteria Fusobacteriia
## 15: Bacteria Lentisphaerae Lentisphaeria
## 16: Bacteria Proteobacteria Alphaproteobacteria
## 17: Bacteria Proteobacteria Betaproteobacteria
## 18: Bacteria Proteobacteria Deltaproteobacteria
## 19: Bacteria Proteobacteria Epsilonproteobacteria
## 20: Bacteria Proteobacteria Gammaproteobacteria
## 21: Bacteria Synergistetes Synergistia
## 22: Bacteria Tenericutes Mollicutes
## 23: Bacteria Verrucomicrobia Verrucomicrobiae
## superkingdom phylum class
## is.significant taxon_level
## <lgcl> <char>
## 1: TRUE class
## 2: FALSE class
## 3: TRUE class
## 4: TRUE class
## 5: FALSE class
## 6: NA class
## 7: FALSE class
## 8: TRUE class
## 9: TRUE class
## 10: FALSE class
## 11: TRUE class
## 12: FALSE class
## 13: FALSE class
## 14: TRUE class
## 15: TRUE class
## 16: TRUE class
## 17: TRUE class
## 18: FALSE class
## 19: FALSE class
## 20: TRUE class
## 21: TRUE class
## 22: TRUE class
## 23: TRUE class
## is.significant taxon_levelFR Taxa that are more similar to C. lupus than to H. sapiens
## Key: <taxon>
## taxon l2fc_Hsap l2fc_Clup
## <char> <num> <num>
## 1: Bacteria;Actinobacteria;Actinobacteria -3.552107 -0.8061817
## 2: Bacteria;Bacteroidetes;Bacteroidia -3.593074 0.4412043
## 3: Bacteria;Firmicutes;Clostridia -2.018137 -1.0458363
## 4: Bacteria;Proteobacteria;Alphaproteobacteria -4.034546 -1.2332693
## 5: Bacteria;Tenericutes;Mollicutes 7.305580 -0.5344194
## similarity
## <char>
## 1: Closer to C. lupus
## 2: Closer to C. lupus
## 3: Closer to C. lupus
## 4: Closer to C. lupus
## 5: Closer to C. lupusHeatmap of VST-normalized abundance values
Heatmap of Log2 FC values
Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance
Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance
Order level
Barplot of abundances
Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus
| taxon_level | comparison | NA | FALSE | TRUE |
|---|---|---|---|---|
| order | FR_VS_Canis_lupus | 4 | 15 | 25 |
| order | FR_VS_Homo_sapiens | 12 | 12 | 20 |
| order | Homo_sapiens_VS_Canis_lupus | 5 | 19 | 20 |
L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus
FR Taxa that are more similar to H. sapiens than to C. lupus
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales
## 2: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales
## 3: Bacteria;Actinobacteria;Actinobacteria;Micrococcales
## 4: Bacteria;Actinobacteria;Actinobacteria;Propionibacteriales
## 5: Bacteria;Actinobacteria;Actinobacteria;Streptomycetales
## 6: Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales
## 7: Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales
## 8: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales
## 9: Bacteria;Candidatus Melainabacteria;unassigned;Vampirovibrionales
## 10: Bacteria;Cyanobacteria;Gloeobacteria;Gloeobacterales
## 11: Bacteria;Cyanobacteria;unassigned;Oscillatoriales
## 12: Bacteria;Deferribacteres;Deferribacteres;Deferribacterales
## 13: Bacteria;Firmicutes;Bacilli;Bacillales
## 14: Bacteria;Firmicutes;Bacilli;Lactobacillales
## 15: Bacteria;Firmicutes;Clostridia;Clostridiales
## 16: Bacteria;Firmicutes;Clostridia;Thermoanaerobacterales
## 17: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales
## 18: Bacteria;Firmicutes;Negativicutes;Acidaminococcales
## 19: Bacteria;Firmicutes;Negativicutes;Selenomonadales
## 20: Bacteria;Firmicutes;Negativicutes;Veillonellales
## 21: Bacteria;Firmicutes;Tissierellia;Tissierellales
## 22: Bacteria;Firmicutes;unassigned;unassigned
## 23: Bacteria;Fusobacteria;Fusobacteriia;Fusobacteriales
## 24: Bacteria;Lentisphaerae;Lentisphaeria;Victivallales
## 25: Bacteria;Proteobacteria;Alphaproteobacteria;Caulobacterales
## 26: Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales
## 27: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales
## 28: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales
## 29: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales
## 30: Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales
## 31: Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales
## 32: Bacteria;Proteobacteria;Deltaproteobacteria;Bradymonadales
## 33: Bacteria;Proteobacteria;Deltaproteobacteria;Desulfobacterales
## 34: Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales
## 35: Bacteria;Proteobacteria;Epsilonproteobacteria;Campylobacterales
## 36: Bacteria;Proteobacteria;Gammaproteobacteria;Aeromonadales
## 37: Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales
## 38: Bacteria;Proteobacteria;Gammaproteobacteria;Pasteurellales
## 39: Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales
## 40: Bacteria;Synergistetes;Synergistia;Synergistales
## 41: Bacteria;Tenericutes;Mollicutes;Acholeplasmatales
## 42: Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales
## 43: Bacteria;Tenericutes;Mollicutes;Mycoplasmatales
## 44: Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales
## taxon
## baseMean log2FoldChange lfcSE stat pvalue padj
## <num> <num> <num> <num> <num> <num>
## 1: 3.789964e+04 -3.1297966 0.8624978 -3.6287591 2.847868e-04 5.695737e-04
## 2: 1.213955e+00 -8.5485216 4.6318256 -1.8456052 6.494955e-02 NA
## 3: 0.000000e+00 0.0000000 0.0000000 0.0000000 1.000000e+00 NA
## 4: 4.599213e+00 0.0000000 3.3990151 0.0000000 1.000000e+00 1.000000e+00
## 5: 0.000000e+00 0.0000000 0.0000000 0.0000000 1.000000e+00 NA
## 6: 2.408592e+03 -2.0048023 1.3027846 -1.5388594 1.238386e-01 1.585134e-01
## 7: 5.338740e+02 -1.6851028 0.4120017 -4.0900388 4.313010e-05 9.858308e-05
## 8: 9.682099e+04 -3.3073901 0.2230242 -14.8297379 9.409964e-50 3.011189e-48
## 9: 2.961092e+02 1.2962180 0.2351245 5.5128999 3.529690e-08 1.129501e-07
## 10: 7.502370e-01 2.2191943 4.6132422 0.4810487 6.304819e-01 NA
## 11: 0.000000e+00 0.0000000 0.0000000 0.0000000 1.000000e+00 NA
## 12: 1.444046e+01 0.0000000 0.9758301 0.0000000 1.000000e+00 1.000000e+00
## 13: 9.390708e+06 -1.9804948 0.3452943 -5.7356712 9.712693e-09 3.453402e-08
## 14: 3.869620e+06 -0.4769474 0.3035654 -1.5711521 1.161473e-01 1.548631e-01
## 15: 8.288821e+05 -1.8125608 0.2518312 -7.1975230 6.131622e-13 2.452649e-12
## 16: 3.620653e+00 4.4897578 3.3864738 1.3257914 1.849088e-01 NA
## 17: 2.136035e+03 1.3506158 0.9974398 1.3540826 1.757100e-01 2.162585e-01
## 18: 1.476085e+04 -4.1946326 0.5326293 -7.8753323 3.398383e-15 1.553547e-14
## 19: 1.051019e+04 4.2118163 0.4313543 9.7641687 1.604222e-22 1.404130e-21
## 20: 2.926565e+05 -0.9714429 0.2715736 -3.5770894 3.474413e-04 6.540072e-04
## 21: 4.647484e+00 1.9370953 3.0878805 0.6273220 5.304482e-01 6.286793e-01
## 22: 4.611862e+00 4.8387944 2.6808715 1.8049333 7.108511e-02 9.890103e-02
## 23: 2.148609e+04 -2.5487737 0.5343924 -4.7694797 1.847024e-06 4.546520e-06
## 24: 2.235640e+01 7.1150450 0.7003288 10.1595775 3.003752e-24 4.806003e-23
## 25: 2.285708e+00 3.8261728 4.3629232 0.8769746 3.805004e-01 NA
## 26: 3.167334e+01 2.2596052 1.0253643 2.2037097 2.754477e-02 4.407163e-02
## 27: 2.321948e+02 -6.1503937 1.6531186 -3.7204793 1.988451e-04 4.242028e-04
## 28: 0.000000e+00 0.0000000 0.0000000 0.0000000 1.000000e+00 NA
## 29: 2.008335e+02 -4.2149736 0.8521472 -4.9462974 7.563837e-07 2.017023e-06
## 30: 1.388626e+01 -12.0665300 2.4282203 -4.9692897 6.719861e-07 1.954869e-06
## 31: 2.637922e+03 -2.4531022 1.1667087 -2.1025833 3.550221e-02 5.409860e-02
## 32: 1.919541e+00 3.5742299 4.6128303 0.7748453 4.384311e-01 NA
## 33: 3.668843e+00 4.5087725 4.3202257 1.0436428 2.966507e-01 NA
## 34: 1.051651e+02 -2.1787117 1.1567417 -1.8834902 5.963397e-02 8.674032e-02
## 35: 3.006470e+01 0.0000000 0.9811436 0.0000000 1.000000e+00 1.000000e+00
## 36: 1.378041e+02 0.0000000 1.6179131 0.0000000 1.000000e+00 1.000000e+00
## 37: 2.098009e+06 -1.5406663 0.4942531 -3.1171608 1.826019e-03 3.075401e-03
## 38: 2.038385e+00 3.6609623 4.6128148 0.7936504 4.273990e-01 NA
## 39: 1.120893e+05 -11.7997057 1.3710168 -8.6065365 7.530120e-18 4.016064e-17
## 40: 1.451048e+01 6.4919215 0.7121435 9.1160295 7.792706e-20 4.987332e-19
## 41: 2.672039e+01 7.3729252 0.7558061 9.7550488 1.755162e-22 1.404130e-21
## 42: 3.107746e+01 0.0000000 1.2329045 0.0000000 1.000000e+00 1.000000e+00
## 43: 3.062292e+00 4.2480970 4.6127316 0.9209504 3.570763e-01 NA
## 44: 3.744499e+03 4.8328916 1.4209742 3.4011115 6.711244e-04 1.193110e-03
## baseMean log2FoldChange lfcSE stat pvalue padj
## comparison superkingdom phylum
## <char> <char> <char>
## 1: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 2: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 3: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 4: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 5: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 6: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 7: FR_VS_Homo_sapiens Bacteria Actinobacteria
## 8: FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 9: FR_VS_Homo_sapiens Bacteria Candidatus Melainabacteria
## 10: FR_VS_Homo_sapiens Bacteria Cyanobacteria
## 11: FR_VS_Homo_sapiens Bacteria Cyanobacteria
## 12: FR_VS_Homo_sapiens Bacteria Deferribacteres
## 13: FR_VS_Homo_sapiens Bacteria Firmicutes
## 14: FR_VS_Homo_sapiens Bacteria Firmicutes
## 15: FR_VS_Homo_sapiens Bacteria Firmicutes
## 16: FR_VS_Homo_sapiens Bacteria Firmicutes
## 17: FR_VS_Homo_sapiens Bacteria Firmicutes
## 18: FR_VS_Homo_sapiens Bacteria Firmicutes
## 19: FR_VS_Homo_sapiens Bacteria Firmicutes
## 20: FR_VS_Homo_sapiens Bacteria Firmicutes
## 21: FR_VS_Homo_sapiens Bacteria Firmicutes
## 22: FR_VS_Homo_sapiens Bacteria Firmicutes
## 23: FR_VS_Homo_sapiens Bacteria Fusobacteria
## 24: FR_VS_Homo_sapiens Bacteria Lentisphaerae
## 25: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 26: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 27: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 28: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 29: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 30: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 31: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 32: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 33: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 34: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 35: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 36: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 37: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 38: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 39: FR_VS_Homo_sapiens Bacteria Proteobacteria
## 40: FR_VS_Homo_sapiens Bacteria Synergistetes
## 41: FR_VS_Homo_sapiens Bacteria Tenericutes
## 42: FR_VS_Homo_sapiens Bacteria Tenericutes
## 43: FR_VS_Homo_sapiens Bacteria Tenericutes
## 44: FR_VS_Homo_sapiens Bacteria Verrucomicrobia
## comparison superkingdom phylum
## class order is.significant taxon_level
## <char> <char> <lgcl> <char>
## 1: Actinobacteria Bifidobacteriales TRUE order
## 2: Actinobacteria Corynebacteriales NA order
## 3: Actinobacteria Micrococcales NA order
## 4: Actinobacteria Propionibacteriales FALSE order
## 5: Actinobacteria Streptomycetales NA order
## 6: Coriobacteriia Coriobacteriales FALSE order
## 7: Coriobacteriia Eggerthellales TRUE order
## 8: Bacteroidia Bacteroidales TRUE order
## 9: unassigned Vampirovibrionales TRUE order
## 10: Gloeobacteria Gloeobacterales NA order
## 11: unassigned Oscillatoriales NA order
## 12: Deferribacteres Deferribacterales FALSE order
## 13: Bacilli Bacillales TRUE order
## 14: Bacilli Lactobacillales FALSE order
## 15: Clostridia Clostridiales TRUE order
## 16: Clostridia Thermoanaerobacterales NA order
## 17: Erysipelotrichia Erysipelotrichales FALSE order
## 18: Negativicutes Acidaminococcales TRUE order
## 19: Negativicutes Selenomonadales TRUE order
## 20: Negativicutes Veillonellales TRUE order
## 21: Tissierellia Tissierellales FALSE order
## 22: unassigned unassigned FALSE order
## 23: Fusobacteriia Fusobacteriales TRUE order
## 24: Lentisphaeria Victivallales TRUE order
## 25: Alphaproteobacteria Caulobacterales NA order
## 26: Alphaproteobacteria Kiloniellales TRUE order
## 27: Alphaproteobacteria Rhizobiales TRUE order
## 28: Alphaproteobacteria Rhodobacterales NA order
## 29: Alphaproteobacteria Rhodospirillales TRUE order
## 30: Alphaproteobacteria Sneathiellales TRUE order
## 31: Betaproteobacteria Burkholderiales FALSE order
## 32: Deltaproteobacteria Bradymonadales NA order
## 33: Deltaproteobacteria Desulfobacterales NA order
## 34: Deltaproteobacteria Desulfovibrionales FALSE order
## 35: Epsilonproteobacteria Campylobacterales FALSE order
## 36: Gammaproteobacteria Aeromonadales FALSE order
## 37: Gammaproteobacteria Enterobacterales TRUE order
## 38: Gammaproteobacteria Pasteurellales NA order
## 39: Gammaproteobacteria Pseudomonadales TRUE order
## 40: Synergistia Synergistales TRUE order
## 41: Mollicutes Acholeplasmatales TRUE order
## 42: Mollicutes Anaeroplasmatales FALSE order
## 43: Mollicutes Mycoplasmatales NA order
## 44: Verrucomicrobiae Verrucomicrobiales TRUE order
## class order is.significant taxon_levelFR Taxa that are more similar to C. lupus than to H. sapiens
## Key: <taxon>
## taxon l2fc_Hsap
## <char> <num>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales -3.1297966
## 2: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales -8.5485216
## 3: Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales -1.6851028
## 4: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales -3.3073901
## 5: Bacteria;Firmicutes;Bacilli;Bacillales -1.9804948
## 6: Bacteria;Firmicutes;Clostridia;Clostridiales -1.8125608
## 7: Bacteria;Firmicutes;Negativicutes;Acidaminococcales -4.1946326
## 8: Bacteria;Firmicutes;Negativicutes;Selenomonadales 4.2118163
## 9: Bacteria;Firmicutes;Negativicutes;Veillonellales -0.9714429
## 10: Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales 2.2596052
## 11: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales -6.1503937
## 12: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales -4.2149736
## 13: Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales -12.0665300
## 14: Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales -11.7997057
## l2fc_Clup similarity
## <num> <char>
## 1: 0.05145230 Closer to C. lupus
## 2: -1.03832095 Closer to C. lupus
## 3: -0.68947019 Closer to C. lupus
## 4: 1.10714242 Closer to C. lupus
## 5: -0.90401405 Closer to C. lupus
## 6: -0.46365319 Closer to C. lupus
## 7: -3.16485407 Closer to C. lupus
## 8: -2.60221612 Closer to C. lupus
## 9: -0.68016762 Closer to C. lupus
## 10: -0.04319134 Closer to C. lupus
## 11: 1.07597191 Closer to C. lupus
## 12: -1.78196847 Closer to C. lupus
## 13: 0.00000000 Closer to C. lupus
## 14: -10.31874938 Closer to C. lupusHeatmap of VST-normalized abundance values
Heatmap of Log2 FC values
Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance
Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance
Family level
Barplot of abundances
Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus
| taxon_level | comparison | NA | FALSE | TRUE |
|---|---|---|---|---|
| family | FR_VS_Canis_lupus | 7 | 25 | 52 |
| family | FR_VS_Homo_sapiens | 12 | 33 | 39 |
| family | Homo_sapiens_VS_Canis_lupus | 7 | 41 | 36 |
L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus
FR Taxa that are more similar to H. sapiens than to C. lupus
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae
## 2: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae
## 3: Bacteria;Actinobacteria;Actinobacteria;Micrococcales;Cellulomonadaceae
## 4: Bacteria;Actinobacteria;Actinobacteria;Propionibacteriales;Propionibacteriaceae
## 5: Bacteria;Actinobacteria;Actinobacteria;Streptomycetales;Streptomycetaceae
## 6: Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Atopobiaceae
## 7: Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Coriobacteriaceae
## 8: Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae
## 9: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Bacteroidaceae
## 10: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Barnesiellaceae
## 11: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Muribaculaceae
## 12: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Odoribacteraceae
## 13: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Porphyromonadaceae
## 14: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Prevotellaceae
## 15: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Rikenellaceae
## 16: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Tannerellaceae
## 17: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;unassigned
## 18: Bacteria;Candidatus Melainabacteria;unassigned;Vampirovibrionales;unassigned
## 19: Bacteria;Cyanobacteria;Gloeobacteria;Gloeobacterales;Gloeobacteraceae
## 20: Bacteria;Cyanobacteria;unassigned;Oscillatoriales;Oscillatoriaceae
## 21: Bacteria;Deferribacteres;Deferribacteres;Deferribacterales;Deferribacteraceae
## 22: Bacteria;Firmicutes;Bacilli;Bacillales;Bacillaceae
## 23: Bacteria;Firmicutes;Bacilli;Bacillales;Listeriaceae
## 24: Bacteria;Firmicutes;Bacilli;Bacillales;Paenibacillaceae
## 25: Bacteria;Firmicutes;Bacilli;Bacillales;Planococcaceae
## 26: Bacteria;Firmicutes;Bacilli;Bacillales;Staphylococcaceae
## 27: Bacteria;Firmicutes;Bacilli;Bacillales;Thermoactinomycetaceae
## 28: Bacteria;Firmicutes;Bacilli;Lactobacillales;Enterococcaceae
## 29: Bacteria;Firmicutes;Bacilli;Lactobacillales;Lactobacillaceae
## 30: Bacteria;Firmicutes;Bacilli;Lactobacillales;Streptococcaceae
## 31: Bacteria;Firmicutes;Clostridia;Clostridiales;
## 32: Bacteria;Firmicutes;Clostridia;Clostridiales;Caldicoprobacteraceae
## 33: Bacteria;Firmicutes;Clostridia;Clostridiales;Catabacteriaceae
## 34: Bacteria;Firmicutes;Clostridia;Clostridiales;Christensenellaceae
## 35: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae
## 36: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiales Family XII. Incertae Sedis
## 37: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiales Family XIII. Incertae Sedis
## 38: Bacteria;Firmicutes;Clostridia;Clostridiales;Defluviitaleaceae
## 39: Bacteria;Firmicutes;Clostridia;Clostridiales;Eubacteriaceae
## 40: Bacteria;Firmicutes;Clostridia;Clostridiales;Gracilibacteraceae
## 41: Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae
## 42: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae
## 43: Bacteria;Firmicutes;Clostridia;Clostridiales;Oscillospiraceae
## 44: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae
## 45: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae
## 46: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae
## 47: Bacteria;Firmicutes;Clostridia;Clostridiales;Vallitaleaceae
## 48: Bacteria;Firmicutes;Clostridia;Clostridiales;unassigned
## 49: Bacteria;Firmicutes;Clostridia;Thermoanaerobacterales;Thermoanaerobacterales Family IV. Incertae Sedis
## 50: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae
## 51: Bacteria;Firmicutes;Negativicutes;Acidaminococcales;Acidaminococcaceae
## 52: Bacteria;Firmicutes;Negativicutes;Selenomonadales;Selenomonadaceae
## 53: Bacteria;Firmicutes;Negativicutes;Selenomonadales;Sporomusaceae
## 54: Bacteria;Firmicutes;Negativicutes;Veillonellales;Veillonellaceae
## 55: Bacteria;Firmicutes;Tissierellia;Tissierellales;Gottschalkiaceae
## 56: Bacteria;Firmicutes;unassigned;unassigned;unassigned
## 57: Bacteria;Fusobacteria;Fusobacteriia;Fusobacteriales;Fusobacteriaceae
## 58: Bacteria;Lentisphaerae;Lentisphaeria;Victivallales;
## 59: Bacteria;Lentisphaerae;Lentisphaeria;Victivallales;Victivallaceae
## 60: Bacteria;Proteobacteria;Alphaproteobacteria;Caulobacterales;Caulobacteraceae
## 61: Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales;Kiloniellaceae
## 62: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Aurantimonadaceae
## 63: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Cohaesibacteraceae
## 64: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Methylocystaceae
## 65: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae
## 66: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodobacterales;Rhodobacteraceae
## 67: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Acetobacteraceae
## 68: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae
## 69: Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae
## 70: Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Oxalobacteraceae
## 71: Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Sutterellaceae
## 72: Bacteria;Proteobacteria;Deltaproteobacteria;Bradymonadales;unassigned
## 73: Bacteria;Proteobacteria;Deltaproteobacteria;Desulfobacterales;Desulfobacteraceae
## 74: Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales;Desulfovibrionaceae
## 75: Bacteria;Proteobacteria;Epsilonproteobacteria;Campylobacterales;Campylobacteraceae
## 76: Bacteria;Proteobacteria;Gammaproteobacteria;Aeromonadales;Succinivibrionaceae
## 77: Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales;Enterobacteriaceae
## 78: Bacteria;Proteobacteria;Gammaproteobacteria;Pasteurellales;Pasteurellaceae
## 79: Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae
## 80: Bacteria;Synergistetes;Synergistia;Synergistales;Synergistaceae
## 81: Bacteria;Tenericutes;Mollicutes;Acholeplasmatales;Acholeplasmataceae
## 82: Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae
## 83: Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae
## 84: Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales;Akkermansiaceae
## taxon
## baseMean log2FoldChange lfcSE stat pvalue
## <num> <num> <num> <num> <num>
## 1: 1.345469e+05 -3.2663218 0.8846475 -3.69222958 2.222967e-04
## 2: 7.249884e-01 -8.6093129 4.6305487 -1.85924251 6.299277e-02
## 3: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 4: 4.371846e+00 0.0000000 3.5082884 0.00000000 1.000000e+00
## 5: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 6: 6.583410e-01 0.0000000 4.6624318 0.00000000 1.000000e+00
## 7: 2.079189e+03 -2.0343653 1.2860961 -1.58181439 1.136919e-01
## 8: 3.619840e+02 -1.6836342 0.4030802 -4.17692116 2.954814e-05
## 9: 2.206729e+05 -3.6123176 0.2803238 -12.88622996 5.381072e-38
## 10: 1.192582e+03 -5.4369514 1.5291879 -3.55545016 3.773325e-04
## 11: 4.173020e+00 0.0000000 4.6624318 0.00000000 1.000000e+00
## 12: 2.834281e+02 -0.6261539 0.9011437 -0.69484357 4.871533e-01
## 13: 9.464097e-02 0.1158891 4.6154999 0.02510868 9.799683e-01
## 14: 1.181086e+02 0.0000000 0.9963727 0.00000000 1.000000e+00
## 15: 1.625402e+03 -3.7730963 1.0943208 -3.44788877 5.649867e-04
## 16: 3.106285e+02 11.0709957 0.7204406 15.36697870 2.725875e-53
## 17: 1.388297e+04 -3.2327432 0.6640427 -4.86827641 1.125758e-06
## 18: 1.754824e+02 1.4544885 0.1822940 7.97880661 1.477549e-15
## 19: 3.960766e-01 2.1800004 4.6132679 0.47255015 6.365342e-01
## 20: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 21: 1.513253e+01 0.0000000 0.9955425 0.00000000 1.000000e+00
## 22: 3.823555e+06 -2.0186244 0.4256241 -4.74273968 2.108471e-06
## 23: 1.513420e+06 -2.0955323 0.5043314 -4.15506964 3.251885e-05
## 24: 4.102248e+02 3.4794528 2.4377710 1.42730913 1.534908e-01
## 25: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 26: 1.748064e+06 -1.8625862 0.4973307 -3.74516680 1.802740e-04
## 27: 4.624176e+03 -1.7733619 0.2915319 -6.08290884 1.180215e-09
## 28: 1.598149e+06 -1.9431586 0.4016660 -4.83774693 1.313192e-06
## 29: 1.437264e+06 0.5208545 0.3062958 1.70049487 8.903788e-02
## 30: 4.585255e+04 -0.7582650 0.3600557 -2.10596552 3.520735e-02
## 31: 4.457552e+02 -0.1150474 0.1334567 -0.86205776 3.886557e-01
## 32: 1.385388e+00 3.9861052 3.7687262 1.05767971 2.902015e-01
## 33: 7.165768e+01 1.7785481 0.1630268 10.90954265 1.037771e-27
## 34: 6.916398e+02 2.7533320 0.1394507 19.74412053 9.012020e-87
## 35: 4.309598e+03 -1.4555051 1.1377737 -1.27925708 2.008065e-01
## 36: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 37: 7.674663e+03 -1.3509657 0.6377111 -2.11846042 3.413609e-02
## 38: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 39: 2.309687e+03 -0.3027821 1.2457211 -0.24305771 8.079607e-01
## 40: 3.619256e+00 5.3713972 1.5250645 3.52207877 4.281769e-04
## 41: 1.262800e+03 0.7973955 1.2420277 0.64201105 5.208660e-01
## 42: 4.720129e+05 -2.1265353 0.2747386 -7.74021351 9.925000e-15
## 43: 2.376802e+03 0.6357975 1.2004557 0.52963013 5.963684e-01
## 44: 1.213736e+03 4.8216677 1.3750216 3.50661233 4.538498e-04
## 45: 2.488053e+05 0.9395678 0.2990948 3.14137154 1.681586e-03
## 46: 8.366078e+05 -1.0640676 0.2980849 -3.56968002 3.574175e-04
## 47: 1.463528e+01 7.3879727 0.6907781 10.69514635 1.072502e-26
## 48: 3.222602e+03 -0.6621443 0.8707339 -0.76044392 4.469893e-01
## 49: 2.065780e+00 4.5624869 3.6811088 1.23943278 2.151853e-01
## 50: 2.040864e+03 1.4313731 0.9745212 1.46879625 1.418881e-01
## 51: 1.071955e+04 -4.0483403 0.5434157 -7.44980299 9.347972e-14
## 52: 1.046237e+04 4.3671750 0.4549956 9.59827990 8.128965e-22
## 53: 1.967536e+00 -1.1453513 4.5723175 -0.25049689 8.022031e-01
## 54: 1.178477e+06 -0.8958716 0.3253683 -2.75340807 5.897833e-03
## 55: 2.545664e+00 2.5329238 3.2578046 0.77749408 4.368673e-01
## 56: 2.630016e+00 4.9108352 2.9272052 1.67765320 9.341482e-02
## 57: 8.082758e+04 -2.4084980 0.5773714 -4.17148803 3.026170e-05
## 58: 1.101254e+01 6.9766841 0.7084102 9.84836744 6.966635e-23
## 59: 1.718654e+00 4.2970514 2.9874273 1.43837855 1.503267e-01
## 60: 1.455749e+00 4.0575458 4.6127569 0.87963574 3.790567e-01
## 61: 2.361182e+01 2.8147458 0.9613838 2.92780664 3.413623e-03
## 62: 4.312379e+00 -11.1862966 3.2542603 -3.43743146 5.872593e-04
## 63: 5.758558e+01 -14.9263778 0.7432388 -20.08288326 1.041696e-89
## 64: 2.507089e+01 -13.7249573 1.9289001 -7.11543170 1.115631e-12
## 65: 3.254856e+01 -3.9049249 1.9048093 -2.05003454 4.036106e-02
## 66: 0.000000e+00 0.0000000 0.0000000 0.00000000 1.000000e+00
## 67: 2.356965e+00 0.0000000 4.6624318 0.00000000 1.000000e+00
## 68: 1.171449e+02 -4.0085322 0.8529851 -4.69941665 2.609057e-06
## 69: 6.965969e+00 -11.8780238 2.5591357 -4.64142005 3.460229e-06
## 70: 6.345251e+00 6.1814034 1.3088346 4.72283001 2.325852e-06
## 71: 1.619298e+03 -2.6160137 0.8737725 -2.99393003 2.754091e-03
## 72: 9.940889e-01 3.5072690 4.6128456 0.76032655 4.470594e-01
## 73: 2.104406e+00 4.5891585 4.6126980 0.99489680 3.197865e-01
## 74: 6.285505e+01 -2.1984796 1.1630697 -1.89023891 5.872601e-02
## 75: 3.131528e+01 0.0000000 0.9936711 0.00000000 1.000000e+00
## 76: 1.500262e+02 0.0000000 1.6553427 0.00000000 1.000000e+00
## 77: 1.816878e+06 -1.4122685 0.5071826 -2.78453625 5.360433e-03
## 78: 1.108016e+00 3.6638418 4.6128169 0.79427429 4.270358e-01
## 79: 8.623415e+04 -11.6286515 1.3653638 -8.51688888 1.638966e-17
## 80: 8.279655e+00 6.5653338 1.2405090 5.29245163 1.206874e-07
## 81: 1.476118e+01 7.3993736 0.7369417 10.04064940 1.010070e-23
## 82: 3.333346e+01 0.0000000 1.5318696 0.00000000 1.000000e+00
## 83: 1.845840e+00 4.4000607 4.6127165 0.95389792 3.401353e-01
## 84: 1.503525e+04 5.0180290 1.4560561 3.44631564 5.682862e-04
## baseMean log2FoldChange lfcSE stat pvalue
## padj comparison superkingdom phylum
## <num> <char> <char> <char>
## 1: 5.927911e-04 FR_VS_Homo_sapiens Bacteria Actinobacteria
## 2: NA FR_VS_Homo_sapiens Bacteria Actinobacteria
## 3: NA FR_VS_Homo_sapiens Bacteria Actinobacteria
## 4: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Actinobacteria
## 5: NA FR_VS_Homo_sapiens Bacteria Actinobacteria
## 6: NA FR_VS_Homo_sapiens Bacteria Actinobacteria
## 7: 1.779526e-01 FR_VS_Homo_sapiens Bacteria Actinobacteria
## 8: 9.078509e-05 FR_VS_Homo_sapiens Bacteria Actinobacteria
## 9: 9.685930e-37 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 10: 9.368255e-04 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 11: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 12: 5.845840e-01 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 13: NA FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 14: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 15: 1.239897e-03 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 16: 6.542101e-52 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 17: 4.767916e-06 FR_VS_Homo_sapiens Bacteria Bacteroidetes
## 18: 9.671227e-15 FR_VS_Homo_sapiens Bacteria Candidatus Melainabacteria
## 19: NA FR_VS_Homo_sapiens Bacteria Cyanobacteria
## 20: NA FR_VS_Homo_sapiens Bacteria Cyanobacteria
## 21: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Deferribacteres
## 22: 7.989997e-06 FR_VS_Homo_sapiens Bacteria Firmicutes
## 23: 9.365428e-05 FR_VS_Homo_sapiens Bacteria Firmicutes
## 24: 2.255375e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 25: NA FR_VS_Homo_sapiens Bacteria Firmicutes
## 26: 4.992202e-04 FR_VS_Homo_sapiens Bacteria Firmicutes
## 27: 5.665030e-09 FR_VS_Homo_sapiens Bacteria Firmicutes
## 28: 5.252768e-06 FR_VS_Homo_sapiens Bacteria Firmicutes
## 29: 1.456984e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 30: 6.182754e-02 FR_VS_Homo_sapiens Bacteria Firmicutes
## 31: 4.997002e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 32: 4.018174e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 33: 1.494391e-26 FR_VS_Homo_sapiens Bacteria Firmicutes
## 34: 3.244327e-85 FR_VS_Homo_sapiens Bacteria Firmicutes
## 35: 2.891614e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 36: NA FR_VS_Homo_sapiens Bacteria Firmicutes
## 37: 6.144497e-02 FR_VS_Homo_sapiens Bacteria Firmicutes
## 38: NA FR_VS_Homo_sapiens Bacteria Firmicutes
## 39: 9.089558e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 40: 1.027625e-03 FR_VS_Homo_sapiens Bacteria Firmicutes
## 41: 6.147927e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 42: 5.955000e-14 FR_VS_Homo_sapiens Bacteria Firmicutes
## 43: 6.925568e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 44: 1.054103e-03 FR_VS_Homo_sapiens Bacteria Firmicutes
## 45: 3.459262e-03 FR_VS_Homo_sapiens Bacteria Firmicutes
## 46: 9.190737e-04 FR_VS_Homo_sapiens Bacteria Firmicutes
## 47: 1.287002e-25 FR_VS_Homo_sapiens Bacteria Firmicutes
## 48: 5.454784e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 49: 3.037910e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 50: 2.173604e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 51: 5.177338e-13 FR_VS_Homo_sapiens Bacteria Firmicutes
## 52: 6.503172e-21 FR_VS_Homo_sapiens Bacteria Firmicutes
## 53: 9.089558e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 54: 1.088831e-02 FR_VS_Homo_sapiens Bacteria Firmicutes
## 55: 5.423181e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 56: 1.494637e-01 FR_VS_Homo_sapiens Bacteria Firmicutes
## 57: 9.078509e-05 FR_VS_Homo_sapiens Bacteria Fusobacteria
## 58: 6.269971e-22 FR_VS_Homo_sapiens Bacteria Lentisphaerae
## 59: 2.254900e-01 FR_VS_Homo_sapiens Bacteria Lentisphaerae
## 60: 4.962196e-01 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 61: 6.642725e-03 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 62: 1.243608e-03 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 63: 7.500208e-88 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 64: 5.737530e-12 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 65: 6.919039e-02 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 66: NA FR_VS_Homo_sapiens Bacteria Proteobacteria
## 67: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 68: 8.945338e-06 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 69: 1.132439e-05 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 70: 8.373069e-06 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 71: 5.508182e-03 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 72: NA FR_VS_Homo_sapiens Bacteria Proteobacteria
## 73: 4.344269e-01 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 74: 9.833193e-02 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 75: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 76: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 77: 1.015661e-02 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 78: 5.394136e-01 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 79: 1.180056e-16 FR_VS_Homo_sapiens Bacteria Proteobacteria
## 80: 5.430933e-07 FR_VS_Homo_sapiens Bacteria Synergistetes
## 81: 1.038929e-22 FR_VS_Homo_sapiens Bacteria Tenericutes
## 82: 1.000000e+00 FR_VS_Homo_sapiens Bacteria Tenericutes
## 83: 4.535138e-01 FR_VS_Homo_sapiens Bacteria Tenericutes
## 84: 1.239897e-03 FR_VS_Homo_sapiens Bacteria Verrucomicrobia
## padj comparison superkingdom phylum
## class order
## <char> <char>
## 1: Actinobacteria Bifidobacteriales
## 2: Actinobacteria Corynebacteriales
## 3: Actinobacteria Micrococcales
## 4: Actinobacteria Propionibacteriales
## 5: Actinobacteria Streptomycetales
## 6: Coriobacteriia Coriobacteriales
## 7: Coriobacteriia Coriobacteriales
## 8: Coriobacteriia Eggerthellales
## 9: Bacteroidia Bacteroidales
## 10: Bacteroidia Bacteroidales
## 11: Bacteroidia Bacteroidales
## 12: Bacteroidia Bacteroidales
## 13: Bacteroidia Bacteroidales
## 14: Bacteroidia Bacteroidales
## 15: Bacteroidia Bacteroidales
## 16: Bacteroidia Bacteroidales
## 17: Bacteroidia Bacteroidales
## 18: unassigned Vampirovibrionales
## 19: Gloeobacteria Gloeobacterales
## 20: unassigned Oscillatoriales
## 21: Deferribacteres Deferribacterales
## 22: Bacilli Bacillales
## 23: Bacilli Bacillales
## 24: Bacilli Bacillales
## 25: Bacilli Bacillales
## 26: Bacilli Bacillales
## 27: Bacilli Bacillales
## 28: Bacilli Lactobacillales
## 29: Bacilli Lactobacillales
## 30: Bacilli Lactobacillales
## 31: Clostridia Clostridiales
## 32: Clostridia Clostridiales
## 33: Clostridia Clostridiales
## 34: Clostridia Clostridiales
## 35: Clostridia Clostridiales
## 36: Clostridia Clostridiales
## 37: Clostridia Clostridiales
## 38: Clostridia Clostridiales
## 39: Clostridia Clostridiales
## 40: Clostridia Clostridiales
## 41: Clostridia Clostridiales
## 42: Clostridia Clostridiales
## 43: Clostridia Clostridiales
## 44: Clostridia Clostridiales
## 45: Clostridia Clostridiales
## 46: Clostridia Clostridiales
## 47: Clostridia Clostridiales
## 48: Clostridia Clostridiales
## 49: Clostridia Thermoanaerobacterales
## 50: Erysipelotrichia Erysipelotrichales
## 51: Negativicutes Acidaminococcales
## 52: Negativicutes Selenomonadales
## 53: Negativicutes Selenomonadales
## 54: Negativicutes Veillonellales
## 55: Tissierellia Tissierellales
## 56: unassigned unassigned
## 57: Fusobacteriia Fusobacteriales
## 58: Lentisphaeria Victivallales
## 59: Lentisphaeria Victivallales
## 60: Alphaproteobacteria Caulobacterales
## 61: Alphaproteobacteria Kiloniellales
## 62: Alphaproteobacteria Rhizobiales
## 63: Alphaproteobacteria Rhizobiales
## 64: Alphaproteobacteria Rhizobiales
## 65: Alphaproteobacteria Rhizobiales
## 66: Alphaproteobacteria Rhodobacterales
## 67: Alphaproteobacteria Rhodospirillales
## 68: Alphaproteobacteria Rhodospirillales
## 69: Alphaproteobacteria Sneathiellales
## 70: Betaproteobacteria Burkholderiales
## 71: Betaproteobacteria Burkholderiales
## 72: Deltaproteobacteria Bradymonadales
## 73: Deltaproteobacteria Desulfobacterales
## 74: Deltaproteobacteria Desulfovibrionales
## 75: Epsilonproteobacteria Campylobacterales
## 76: Gammaproteobacteria Aeromonadales
## 77: Gammaproteobacteria Enterobacterales
## 78: Gammaproteobacteria Pasteurellales
## 79: Gammaproteobacteria Pseudomonadales
## 80: Synergistia Synergistales
## 81: Mollicutes Acholeplasmatales
## 82: Mollicutes Anaeroplasmatales
## 83: Mollicutes Mycoplasmatales
## 84: Verrucomicrobiae Verrucomicrobiales
## class order
## family is.significant taxon_level
## <char> <lgcl> <char>
## 1: Bifidobacteriaceae TRUE family
## 2: Segniliparaceae NA family
## 3: Cellulomonadaceae NA family
## 4: Propionibacteriaceae FALSE family
## 5: Streptomycetaceae NA family
## 6: Atopobiaceae NA family
## 7: Coriobacteriaceae FALSE family
## 8: Eggerthellaceae TRUE family
## 9: Bacteroidaceae TRUE family
## 10: Barnesiellaceae TRUE family
## 11: Muribaculaceae FALSE family
## 12: Odoribacteraceae FALSE family
## 13: Porphyromonadaceae NA family
## 14: Prevotellaceae FALSE family
## 15: Rikenellaceae TRUE family
## 16: Tannerellaceae TRUE family
## 17: unassigned TRUE family
## 18: unassigned TRUE family
## 19: Gloeobacteraceae NA family
## 20: Oscillatoriaceae NA family
## 21: Deferribacteraceae FALSE family
## 22: Bacillaceae TRUE family
## 23: Listeriaceae TRUE family
## 24: Paenibacillaceae FALSE family
## 25: Planococcaceae NA family
## 26: Staphylococcaceae TRUE family
## 27: Thermoactinomycetaceae TRUE family
## 28: Enterococcaceae TRUE family
## 29: Lactobacillaceae FALSE family
## 30: Streptococcaceae FALSE family
## 31: FALSE family
## 32: Caldicoprobacteraceae FALSE family
## 33: Catabacteriaceae TRUE family
## 34: Christensenellaceae TRUE family
## 35: Clostridiaceae FALSE family
## 36: Clostridiales Family XII. Incertae Sedis NA family
## 37: Clostridiales Family XIII. Incertae Sedis FALSE family
## 38: Defluviitaleaceae NA family
## 39: Eubacteriaceae FALSE family
## 40: Gracilibacteraceae TRUE family
## 41: Hungateiclostridiaceae FALSE family
## 42: Lachnospiraceae TRUE family
## 43: Oscillospiraceae FALSE family
## 44: Peptococcaceae TRUE family
## 45: Peptostreptococcaceae TRUE family
## 46: Ruminococcaceae TRUE family
## 47: Vallitaleaceae TRUE family
## 48: unassigned FALSE family
## 49: Thermoanaerobacterales Family IV. Incertae Sedis FALSE family
## 50: Erysipelotrichaceae FALSE family
## 51: Acidaminococcaceae TRUE family
## 52: Selenomonadaceae TRUE family
## 53: Sporomusaceae FALSE family
## 54: Veillonellaceae TRUE family
## 55: Gottschalkiaceae FALSE family
## 56: unassigned FALSE family
## 57: Fusobacteriaceae TRUE family
## 58: TRUE family
## 59: Victivallaceae FALSE family
## 60: Caulobacteraceae FALSE family
## 61: Kiloniellaceae TRUE family
## 62: Aurantimonadaceae TRUE family
## 63: Cohaesibacteraceae TRUE family
## 64: Methylocystaceae TRUE family
## 65: Rhizobiaceae FALSE family
## 66: Rhodobacteraceae NA family
## 67: Acetobacteraceae FALSE family
## 68: Rhodospirillaceae TRUE family
## 69: Sneathiellaceae TRUE family
## 70: Oxalobacteraceae TRUE family
## 71: Sutterellaceae TRUE family
## 72: unassigned NA family
## 73: Desulfobacteraceae FALSE family
## 74: Desulfovibrionaceae FALSE family
## 75: Campylobacteraceae FALSE family
## 76: Succinivibrionaceae FALSE family
## 77: Enterobacteriaceae TRUE family
## 78: Pasteurellaceae FALSE family
## 79: Pseudomonadaceae TRUE family
## 80: Synergistaceae TRUE family
## 81: Acholeplasmataceae TRUE family
## 82: Anaeroplasmataceae FALSE family
## 83: Mycoplasmataceae FALSE family
## 84: Akkermansiaceae TRUE family
## family is.significant taxon_levelFR Taxa that are more similar to C. lupus than to H. sapiens
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae
## 2: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae
## 3: Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae
## 4: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Bacteroidaceae
## 5: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Tannerellaceae
## 6: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;unassigned
## 7: Bacteria;Firmicutes;Bacilli;Bacillales;Bacillaceae
## 8: Bacteria;Firmicutes;Bacilli;Bacillales;Listeriaceae
## 9: Bacteria;Firmicutes;Bacilli;Bacillales;Staphylococcaceae
## 10: Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae
## 11: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae
## 12: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae
## 13: Bacteria;Firmicutes;Negativicutes;Selenomonadales;Selenomonadaceae
## 14: Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales;Kiloniellaceae
## 15: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Aurantimonadaceae
## 16: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Cohaesibacteraceae
## 17: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Methylocystaceae
## 18: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae
## 19: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae
## 20: Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae
## 21: Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae
## taxon
## l2fc_Hsap l2fc_Clup similarity
## <num> <num> <char>
## 1: -3.2663218 -0.7983588 Closer to C. lupus
## 2: -8.6093129 -1.8994613 Closer to C. lupus
## 3: -1.6836342 -1.4653496 Closer to C. lupus
## 4: -3.6123176 -0.3208338 Closer to C. lupus
## 5: 11.0709957 0.6182840 Closer to C. lupus
## 6: -3.2327432 0.4131610 Closer to C. lupus
## 7: -2.0186244 -1.6660527 Closer to C. lupus
## 8: -2.0955323 -1.7600449 Closer to C. lupus
## 9: -1.8625862 -1.6204782 Closer to C. lupus
## 10: 0.7973955 0.7715655 Closer to C. lupus
## 11: -2.1265353 -1.1531527 Closer to C. lupus
## 12: -1.0640676 0.5864209 Closer to C. lupus
## 13: 4.3671750 -3.5078516 Closer to C. lupus
## 14: 2.8147458 -0.8172475 Closer to C. lupus
## 15: -11.1862966 0.0000000 Closer to C. lupus
## 16: -14.9263778 0.0000000 Closer to C. lupus
## 17: -13.7249573 0.0000000 Closer to C. lupus
## 18: -3.9049249 0.5748327 Closer to C. lupus
## 19: -4.0085322 -2.4895519 Closer to C. lupus
## 20: -11.8780238 0.0000000 Closer to C. lupus
## 21: -11.6286515 -11.1961814 Closer to C. lupus
## l2fc_Hsap l2fc_Clup similarityHeatmap of VST-normalized abundance values
Heatmap of Log2 FC values
Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance
Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance
Genus level
Barplot of abundances
Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus
| taxon_level | comparison | NA | FALSE | TRUE |
|---|---|---|---|---|
| genus | FR_VS_Canis_lupus | 28 | 93 | 151 |
| genus | FR_VS_Homo_sapiens | 28 | 110 | 134 |
| genus | Homo_sapiens_VS_Canis_lupus | 28 | 118 | 126 |
L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus
FR Taxa that are more similar to H. sapiens than to C. lupus
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium
## 2: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae;Segniliparus
## 3: Bacteria;Actinobacteria;Actinobacteria;Micrococcales;Cellulomonadaceae;Oerskovia
## 4: Bacteria;Actinobacteria;Actinobacteria;Propionibacteriales;Propionibacteriaceae;Raineyella
## 5: Bacteria;Actinobacteria;Actinobacteria;Streptomycetales;Streptomycetaceae;Streptomyces
## ---
## 268: Bacteria;Synergistetes;Synergistia;Synergistales;Synergistaceae;Pyramidobacter
## 269: Bacteria;Tenericutes;Mollicutes;Acholeplasmatales;Acholeplasmataceae;Acholeplasma
## 270: Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae;Anaeroplasma
## 271: Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae;Mycoplasma
## 272: Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales;Akkermansiaceae;Akkermansia
## baseMean log2FoldChange lfcSE stat pvalue padj
## <num> <num> <num> <num> <num> <num>
## 1: 2.566360e+05 -3.012135 0.8905053 -3.382501 7.182906e-04 1.735276e-03
## 2: 6.332257e-01 -8.420383 4.6280473 -1.819425 6.884668e-02 1.158523e-01
## 3: 0.000000e+00 0.000000 0.0000000 0.000000 1.000000e+00 NA
## 4: 3.485552e+00 0.000000 3.4937496 0.000000 1.000000e+00 1.000000e+00
## 5: 0.000000e+00 0.000000 0.0000000 0.000000 1.000000e+00 NA
## ---
## 268: 1.441113e+00 4.432221 2.9860085 1.484330 1.377215e-01 2.126838e-01
## 269: 1.477291e+01 7.789918 0.7566880 10.294755 7.440869e-25 6.051907e-24
## 270: 2.204190e+01 0.000000 1.4004337 0.000000 1.000000e+00 1.000000e+00
## 271: 1.915655e+00 4.842874 4.6127065 1.049899 2.937648e-01 4.049638e-01
## 272: 3.129508e+04 5.286757 1.4467111 3.654328 2.578564e-04 6.622837e-04
## comparison superkingdom phylum class
## <char> <char> <char> <char>
## 1: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 2: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 3: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 4: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 5: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## ---
## 268: FR_VS_Homo_sapiens Bacteria Synergistetes Synergistia
## 269: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 270: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 271: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 272: FR_VS_Homo_sapiens Bacteria Verrucomicrobia Verrucomicrobiae
## order family genus is.significant
## <char> <char> <char> <lgcl>
## 1: Bifidobacteriales Bifidobacteriaceae Bifidobacterium TRUE
## 2: Corynebacteriales Segniliparaceae Segniliparus FALSE
## 3: Micrococcales Cellulomonadaceae Oerskovia NA
## 4: Propionibacteriales Propionibacteriaceae Raineyella FALSE
## 5: Streptomycetales Streptomycetaceae Streptomyces NA
## ---
## 268: Synergistales Synergistaceae Pyramidobacter FALSE
## 269: Acholeplasmatales Acholeplasmataceae Acholeplasma TRUE
## 270: Anaeroplasmatales Anaeroplasmataceae Anaeroplasma FALSE
## 271: Mycoplasmatales Mycoplasmataceae Mycoplasma FALSE
## 272: Verrucomicrobiales Akkermansiaceae Akkermansia TRUE
## taxon_level
## <char>
## 1: genus
## 2: genus
## 3: genus
## 4: genus
## 5: genus
## ---
## 268: genus
## 269: genus
## 270: genus
## 271: genus
## 272: genusFR Taxa that are more similar to C. lupus than to H. sapiens
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium
## 2: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae;Segniliparus
## 3: Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Coriobacteriaceae;Enorma
## 4: Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae;Gordonibacter
## 5: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Bacteroidaceae;Bacteroides
## 6: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;Tannerellaceae;Parabacteroides
## 7: Bacteria;Bacteroidetes;Bacteroidia;Bacteroidales;unassigned;Phocaeicola
## 8: Bacteria;Firmicutes;Bacilli;Bacillales;Bacillaceae;Bacillus
## 9: Bacteria;Firmicutes;Bacilli;Bacillales;Listeriaceae;Listeria
## 10: Bacteria;Firmicutes;Bacilli;Bacillales;Staphylococcaceae;Staphylococcus
## 11: Bacteria;Firmicutes;Bacilli;Lactobacillales;Lactobacillaceae;Limosilactobacillus
## 12: Bacteria;Firmicutes;Clostridia;Clostridiales;;
## 13: Bacteria;Firmicutes;Clostridia;Clostridiales;;Intestinimonas
## 14: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Alkaliphilus
## 15: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Falcatimonas
## 16: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Hungatella
## 17: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Lactonifactor
## 18: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiaceae;Youngiibacter
## 19: Bacteria;Firmicutes;Clostridia;Clostridiales;Clostridiales Family XIII. Incertae Sedis;Casaltella
## 20: Bacteria;Firmicutes;Clostridia;Clostridiales;Eubacteriaceae;Anaerofustis
## 21: Bacteria;Firmicutes;Clostridia;Clostridiales;Eubacteriaceae;Intestinibacillus
## 22: Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Anaerobacterium
## 23: Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Ercella
## 24: Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Pseudoclostridium
## 25: Bacteria;Firmicutes;Clostridia;Clostridiales;Hungateiclostridiaceae;Ruminiclostridium
## 26: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Agathobacter
## 27: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerobium
## 28: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerobutyricum
## 29: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerocolumna
## 30: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerotaenia
## 31: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Anaerotignum
## 32: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Bariatricus
## 33: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Blautia
## 34: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Coprococcus
## 35: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Enterocloster
## 36: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Kineothrix
## 37: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lachnoclostridium
## 38: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lachnospira
## 39: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lachnotalea
## 40: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Lacrimispora
## 41: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Marvinbryantia
## 42: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Mediterraneibacter
## 43: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Sellimonas
## 44: Bacteria;Firmicutes;Clostridia;Clostridiales;Lachnospiraceae;Tyzzerella
## 45: Bacteria;Firmicutes;Clostridia;Clostridiales;Oscillospiraceae;Oscillibacter
## 46: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae;Dehalobacterium
## 47: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae;Desulfitobacterium
## 48: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptococcaceae;Peptococcus
## 49: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Clostridioides
## 50: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Intestinibacter
## 51: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Romboutsia
## 52: Bacteria;Firmicutes;Clostridia;Clostridiales;Peptostreptococcaceae;Terrisporobacter
## 53: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Anaerotruncus
## 54: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Drancourtella
## 55: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Faecalibacterium
## 56: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Flavonifractor
## 57: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Gemmiger
## 58: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Harryflintia
## 59: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Negativibacillus
## 60: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Paludicola
## 61: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Papillibacter
## 62: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Phocea
## 63: Bacteria;Firmicutes;Clostridia;Clostridiales;Ruminococcaceae;Sporobacter
## 64: Bacteria;Firmicutes;Clostridia;Clostridiales;unassigned;Natranaerovirga
## 65: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Amedibacillus
## 66: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Faecalicoccus
## 67: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Faecalitalea
## 68: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Longibaculum
## 69: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Massilimicrobiota
## 70: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;Turicibacter
## 71: Bacteria;Firmicutes;Erysipelotrichia;Erysipelotrichales;Erysipelotrichaceae;unassigned
## 72: Bacteria;Firmicutes;Negativicutes;Acidaminococcales;Acidaminococcaceae;Phascolarctobacterium
## 73: Bacteria;Firmicutes;Negativicutes;Selenomonadales;Selenomonadaceae;Megamonas
## 74: Bacteria;Firmicutes;Negativicutes;Veillonellales;Veillonellaceae;Veillonella
## 75: Bacteria;Proteobacteria;Alphaproteobacteria;Kiloniellales;Kiloniellaceae;Kiloniella
## 76: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Aurantimonadaceae;Martelella
## 77: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Cohaesibacteraceae;Cohaesibacter
## 78: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Methylocystaceae;Terasakiella
## 79: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae;Gellertiella
## 80: Bacteria;Proteobacteria;Alphaproteobacteria;Rhizobiales;Rhizobiaceae;Liberibacter
## 81: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Pararhodospirillum
## 82: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Rhodospirillum
## 83: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Varunaivibrio
## 84: Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae;Sneathiella
## 85: Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Sutterellaceae;Parasutterella
## 86: Bacteria;Proteobacteria;Betaproteobacteria;Burkholderiales;Sutterellaceae;Sutterella
## 87: Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales;Desulfovibrionaceae;Lawsonia
## 88: Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales;Enterobacteriaceae;Salmonella
## 89: Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae;Pseudomonas
## taxon
## l2fc_Hsap l2fc_Clup similarity
## <num> <num> <char>
## 1: -3.0121350 -0.45848747 Closer to C. lupus
## 2: -8.4203829 -1.40937122 Closer to C. lupus
## 3: 5.0471647 -0.31432304 Closer to C. lupus
## 4: -8.0370963 -1.40937122 Closer to C. lupus
## 5: -3.2764497 0.17489948 Closer to C. lupus
## 6: 11.4187943 1.05441409 Closer to C. lupus
## 7: -2.9015252 0.87317838 Closer to C. lupus
## 8: -1.6711065 -1.15847275 Closer to C. lupus
## 9: -1.7325043 -1.24549702 Closer to C. lupus
## 10: -1.5396447 -1.13892569 Closer to C. lupus
## 11: -1.5753817 -1.24287066 Closer to C. lupus
## 12: -2.4241160 -0.93255360 Closer to C. lupus
## 13: 5.6137653 4.53194437 Closer to C. lupus
## 14: 7.9662512 1.21500323 Closer to C. lupus
## 15: 9.7212944 3.54891281 Closer to C. lupus
## 16: -2.2685869 -1.02369091 Closer to C. lupus
## 17: -2.8134690 0.35375270 Closer to C. lupus
## 18: 4.8480726 1.43620108 Closer to C. lupus
## 19: -4.6429235 -0.03312775 Closer to C. lupus
## 20: -2.6533653 -2.43702962 Closer to C. lupus
## 21: 6.6954329 1.88285865 Closer to C. lupus
## 22: 6.0600100 0.04022364 Closer to C. lupus
## 23: 2.5581997 1.42021052 Closer to C. lupus
## 24: 6.8876137 0.87233094 Closer to C. lupus
## 25: 9.1636065 -0.25598439 Closer to C. lupus
## 26: 6.1455246 3.72279368 Closer to C. lupus
## 27: 3.0464523 1.29284569 Closer to C. lupus
## 28: -2.5386162 2.22508313 Closer to C. lupus
## 29: 8.5700320 0.62569438 Closer to C. lupus
## 30: 8.1713097 -1.78185089 Closer to C. lupus
## 31: -3.5862784 -2.73691372 Closer to C. lupus
## 32: 1.0887688 -0.79589460 Closer to C. lupus
## 33: -3.0364066 -1.85596209 Closer to C. lupus
## 34: 4.8278317 1.59290285 Closer to C. lupus
## 35: -2.0270751 -0.39036706 Closer to C. lupus
## 36: 9.8425707 5.22915149 Closer to C. lupus
## 37: -3.0551890 0.07520953 Closer to C. lupus
## 38: 1.8323938 0.33081000 Closer to C. lupus
## 39: 3.8627132 -0.53622307 Closer to C. lupus
## 40: -1.3003321 -0.09307424 Closer to C. lupus
## 41: 8.3857904 3.65936264 Closer to C. lupus
## 42: -1.1338351 -0.88145409 Closer to C. lupus
## 43: -13.2627548 -12.46632195 Closer to C. lupus
## 44: 2.3586337 -2.23445574 Closer to C. lupus
## 45: 2.2487110 2.20078689 Closer to C. lupus
## 46: 6.4024863 1.87584528 Closer to C. lupus
## 47: -8.6621871 -1.40937122 Closer to C. lupus
## 48: 40.4685469 -6.01928652 Closer to C. lupus
## 49: -1.5610424 -1.41825060 Closer to C. lupus
## 50: 9.5402355 5.11186000 Closer to C. lupus
## 51: 5.8655750 -2.51003488 Closer to C. lupus
## 52: 8.8142631 3.01338942 Closer to C. lupus
## 53: -1.3451341 0.03901538 Closer to C. lupus
## 54: -5.2276875 0.91190120 Closer to C. lupus
## 55: -1.4734777 0.21886642 Closer to C. lupus
## 56: -2.2278250 -0.02580101 Closer to C. lupus
## 57: 7.3590627 7.15431632 Closer to C. lupus
## 58: -1.0563060 -1.04835158 Closer to C. lupus
## 59: 2.9751339 -2.36409462 Closer to C. lupus
## 60: -1.4565717 0.04691463 Closer to C. lupus
## 61: 7.6858652 -0.24657961 Closer to C. lupus
## 62: -0.7193905 -0.61018800 Closer to C. lupus
## 63: 2.6545190 1.36413873 Closer to C. lupus
## 64: 5.8083940 2.30216304 Closer to C. lupus
## 65: 4.9986425 -1.93472411 Closer to C. lupus
## 66: 7.1418170 2.82473557 Closer to C. lupus
## 67: 4.6258178 -0.39030713 Closer to C. lupus
## 68: 5.6191826 1.69614454 Closer to C. lupus
## 69: -13.5202087 0.00000000 Closer to C. lupus
## 70: 7.3476391 -2.62988277 Closer to C. lupus
## 71: 5.6579576 -2.05636756 Closer to C. lupus
## 72: -3.6584119 -3.53507685 Closer to C. lupus
## 73: 4.7538952 -2.98159218 Closer to C. lupus
## 74: -1.5359058 -1.04429418 Closer to C. lupus
## 75: 3.1709134 -0.33481682 Closer to C. lupus
## 76: -10.8480897 0.00000000 Closer to C. lupus
## 77: -14.5414943 0.00000000 Closer to C. lupus
## 78: -13.3545433 0.00000000 Closer to C. lupus
## 79: -11.4251264 -9.22520449 Closer to C. lupus
## 80: -13.1884608 0.00000000 Closer to C. lupus
## 81: -8.9650480 0.00000000 Closer to C. lupus
## 82: -9.7719266 0.00000000 Closer to C. lupus
## 83: -12.9994904 0.00000000 Closer to C. lupus
## 84: -11.4905833 0.00000000 Closer to C. lupus
## 85: -3.4903825 -3.27446855 Closer to C. lupus
## 86: 24.4263376 -5.19640477 Closer to C. lupus
## 87: -8.3976898 -1.40937122 Closer to C. lupus
## 88: -1.4625887 -0.94143418 Closer to C. lupus
## 89: -11.1658289 -10.76282595 Closer to C. lupus
## l2fc_Hsap l2fc_Clup similarityHeatmap of VST-normalized abundance values
Heatmap of Log2 FC values
Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance
Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance
Species level
Barplot of abundances
Number of Significantly Different Taxa Among FR, H. sapiens and C. lupus
| taxon_level | comparison | NA | FALSE | TRUE |
|---|---|---|---|---|
| species | FR_VS_Canis_lupus | 63 | 167 | 354 |
| species | FR_VS_Homo_sapiens | 72 | 262 | 250 |
| species | Homo_sapiens_VS_Canis_lupus | 63 | 229 | 292 |
L2FC of Taxa in FR vs H. sapiens and in FR vs C. lupus
FR Taxa that are more similar to H. sapiens than to C. lupus
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium adolescentis
## 2: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium animalis
## 3: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium bifidum
## 4: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium choerinum
## 5: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium faecale
## ---
## 580: Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae;Anaeroplasma;Anaeroplasma abactoclasticum
## 581: Bacteria;Tenericutes;Mollicutes;Anaeroplasmatales;Anaeroplasmataceae;Anaeroplasma;Anaeroplasma varium
## 582: Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae;Mycoplasma;Mycoplasma capricolum
## 583: Bacteria;Tenericutes;Mollicutes;Mycoplasmatales;Mycoplasmataceae;Mycoplasma;Mycoplasma mycoides
## 584: Bacteria;Verrucomicrobia;Verrucomicrobiae;Verrucomicrobiales;Akkermansiaceae;Akkermansia;Akkermansia muciniphila
## baseMean log2FoldChange lfcSE stat pvalue padj
## <num> <num> <num> <num> <num> <num>
## 1: 3.400317e+05 -7.398759 0.8284125 -8.931251 4.212188e-19 2.396267e-18
## 2: 2.712821e+00 0.000000 4.5665567 0.000000 1.000000e+00 1.000000e+00
## 3: 6.084718e+01 9.798857 3.5284153 2.777127 5.484176e-03 1.293962e-02
## 4: 1.000745e+01 0.000000 3.5351808 0.000000 1.000000e+00 1.000000e+00
## 5: 8.652650e+02 -32.723418 2.0996891 -15.584887 9.222630e-55 1.686424e-53
## ---
## 580: 1.197086e+01 0.000000 1.4863526 0.000000 1.000000e+00 1.000000e+00
## 581: 4.054502e+00 0.000000 2.9345498 0.000000 1.000000e+00 1.000000e+00
## 582: 2.406039e+00 5.138476 4.6127224 1.113979 2.652882e-01 4.115987e-01
## 583: 0.000000e+00 0.000000 0.0000000 0.000000 1.000000e+00 NA
## 584: 3.919312e+04 5.761607 1.4645784 3.933970 8.355424e-05 2.416936e-04
## comparison superkingdom phylum class
## <char> <char> <char> <char>
## 1: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 2: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 3: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 4: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## 5: FR_VS_Homo_sapiens Bacteria Actinobacteria Actinobacteria
## ---
## 580: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 581: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 582: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 583: FR_VS_Homo_sapiens Bacteria Tenericutes Mollicutes
## 584: FR_VS_Homo_sapiens Bacteria Verrucomicrobia Verrucomicrobiae
## order family genus
## <char> <char> <char>
## 1: Bifidobacteriales Bifidobacteriaceae Bifidobacterium
## 2: Bifidobacteriales Bifidobacteriaceae Bifidobacterium
## 3: Bifidobacteriales Bifidobacteriaceae Bifidobacterium
## 4: Bifidobacteriales Bifidobacteriaceae Bifidobacterium
## 5: Bifidobacteriales Bifidobacteriaceae Bifidobacterium
## ---
## 580: Anaeroplasmatales Anaeroplasmataceae Anaeroplasma
## 581: Anaeroplasmatales Anaeroplasmataceae Anaeroplasma
## 582: Mycoplasmatales Mycoplasmataceae Mycoplasma
## 583: Mycoplasmatales Mycoplasmataceae Mycoplasma
## 584: Verrucomicrobiales Akkermansiaceae Akkermansia
## species is.significant taxon_level
## <char> <lgcl> <char>
## 1: Bifidobacterium adolescentis TRUE species
## 2: Bifidobacterium animalis FALSE species
## 3: Bifidobacterium bifidum TRUE species
## 4: Bifidobacterium choerinum FALSE species
## 5: Bifidobacterium faecale TRUE species
## ---
## 580: Anaeroplasma abactoclasticum FALSE species
## 581: Anaeroplasma varium FALSE species
## 582: Mycoplasma capricolum FALSE species
## 583: Mycoplasma mycoides NA species
## 584: Akkermansia muciniphila TRUE speciesFR Taxa that are more similar to C. lupus than to H. sapiens
## Key: <taxon>
## taxon
## <char>
## 1: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium adolescentis
## 2: Bacteria;Actinobacteria;Actinobacteria;Bifidobacteriales;Bifidobacteriaceae;Bifidobacterium;Bifidobacterium faecale
## 3: Bacteria;Actinobacteria;Actinobacteria;Corynebacteriales;Segniliparaceae;Segniliparus;Segniliparus rotundus
## 4: Bacteria;Actinobacteria;Coriobacteriia;Coriobacteriales;Coriobacteriaceae;Enorma;Enorma massiliensis
## 5: Bacteria;Actinobacteria;Coriobacteriia;Eggerthellales;Eggerthellaceae;Gordonibacter;Gordonibacter pamelaeae
## ---
## 153: Bacteria;Proteobacteria;Alphaproteobacteria;Rhodospirillales;Rhodospirillaceae;Varunaivibrio;Varunaivibrio sulfuroxidans
## 154: Bacteria;Proteobacteria;Alphaproteobacteria;Sneathiellales;Sneathiellaceae;Sneathiella;Sneathiella glossodoripedis
## 155: Bacteria;Proteobacteria;Deltaproteobacteria;Desulfovibrionales;Desulfovibrionaceae;Lawsonia;Lawsonia intracellularis
## 156: Bacteria;Proteobacteria;Gammaproteobacteria;Enterobacterales;Enterobacteriaceae;Salmonella;Salmonella enterica
## 157: Bacteria;Proteobacteria;Gammaproteobacteria;Pseudomonadales;Pseudomonadaceae;Pseudomonas;Pseudomonas aeruginosa
## l2fc_Hsap l2fc_Clup similarity
## <num> <num> <char>
## 1: -7.3987594 -0.20742229 Closer to C. lupus
## 2: -32.7234180 0.00000000 Closer to C. lupus
## 3: -7.7786398 -0.44928104 Closer to C. lupus
## 4: 5.5083361 1.49181565 Closer to C. lupus
## 5: -7.5393801 0.00000000 Closer to C. lupus
## ---
## 153: -12.5413819 0.00000000 Closer to C. lupus
## 154: -11.0557259 0.00000000 Closer to C. lupus
## 155: -8.0530806 -0.44928104 Closer to C. lupus
## 156: -0.9950949 0.04819244 Closer to C. lupus
## 157: -10.7212727 -9.77677072 Closer to C. lupusHeatmap of VST-normalized abundance values
Heatmap of Log2 FC values
Similarity of FR Taxa to Homo sapiens and Canis lupus based on VST-norm. Abundance
Similarity of FR Taxa to Homo sapiens and Canis lupus based on Relative Abundance
B-diversity Analysis using sample-wise Bray-Curtis distances
Non-metric Multi-Dimensional Scaling (NMDS)
NMDS v1: color = DNA_isolation_method; shape = Vregion
NMDS v2: color = Vregion; shape = DNA_isolation_method
